Rmu_sc0010088.1_g000010

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0010088.1
OG0000562
Physical Location & Seq
Forward (+)
19673 .. 22846
3174 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0010088.1_g000010.1.cds

Sequence Viewer

Length: 1170 bp
atgtgggatataataaatactaatcagggactactgagaatagttgaggatagagtagtggagctgctgacgaatgaggctgagggtgtaaaattcaagctaacagattgtgcagatgtagtgaaagatggtacgatttacatcacagatgattcatataaaaatgacttagaagacttcatctgggactttctagagggcagaccctatggtaggttactgagctacaatccatcgaccaaagagaccaaagtgcttgtccgcgacctctactatgctaatggagtagcactctctccggatcagaattatgtgatcttttgcgaaactttcatgagaagatgtagaaagtactacctgcaaagcgaggagaaatggagcatagagaacttcattgacaacttgctgggctgcccggataatatacgatatgatgaggaagaccattattggatcgcattacctatgaaaaatgttgctcaagtttttcaactcaaacgagatattgctgatcttcaacaagaaggtaagccttttgttcaacacctcggtagtcttacaaggatgtggaatgagctggatgtttatagacctcataccaccgtggctagggttttgttaaagagagatgaggaggacaagatttttcaactcctcgcaagcttaagttcagattatgaagacttgaggagtcacattcttatgaatgctaagctaccatctttcaacaatgtgtgtgctactattcaaagggaagagattcgaaaagaggtgatgaatatggagaccaagacaagtgtatttgaaactagagcttatgtctttaatcacaggcaagctgaagctaaagtgtacaaaggcaagagaccagacttgaagtgcagctactgtgagggtgttggacatgtcaaggacatatgttggattctatatcctgaacagaagccaaagtttctaaaggaaggaaaaagttctcaaaaaggtatgctgaagttcacctccaatcctaccactttcatcaacgaattttctacctatctcagcaagaagcagatacagattggaggtgaagaaacagccatgcctggaattgaaggccacactgatcttcttggaaaatttgttggtttccttgcaaaaactgattatgttccacatgaagaagcttaa
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Retrotran_gag_2 Retrotran_gag_3 Retrotrans_gag rve

Protein Analysis

389

Amino Acids

45.29

Weight (kDa)

5.56

Isoelectric Point (pI)

37.93

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000562)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g17331 FvH4_3g36541
malus_domestica MD07G1078600.v1.1 MD10G1237700.v1.1 MD10G1333400.v1.1 MD11G1102200.v1.1 MD13G1138400.v1.1 MD14G1033400.v1.1 MD15G1053300.v1.1
prunus_persica Prupe.1G465400_v2.0.a1 Prupe.3G136000_v2.0.a1 Prupe.7G119900_v2.0.a1
pyrus_communis pycom01g04630 pycom03g13050 pycom04g21190 pycom05g04910 pycom05g05510 pycom08g15850 pycom09g15040 pycom1094g00010 pycom11g02000 pycom12g06150 pycom13g24110 pycom13g24910 pycom14g00050 pycom15g21970 pycom15g35170 pycom15g35180 pycom16g14620 pycom16g14630 pycom808g00110
rosa_chinensis RchiOBHm_Chr1g0322851 RchiOBHm_Chr1g0365941 RchiOBHm_Chr3g0453341 RchiOBHm_Chr4g0388371 RchiOBHm_Chr4g0394021 RchiOBHm_Chr5g0013181 RchiOBHm_Chr6g0261721 RchiOBHm_Chr6g0261731 RchiOBHm_Chr7g0188861 RchiOBHm_Chr7g0192331 RchiOBHm_Chr7g0231721
rosa_multiflora Rmu_sc0002521.1_g000006 Rmu_sc0003255.1_g000026 Rmu_sc0004191.1_g000036 Rmu_sc0004414.1_g000014 Rmu_sc0005670.1_g000006 Rmu_sc0006081.1_g000001 Rmu_sc0007215.1_g000004 Rmu_sc0010088.1_g000010 Rmu_sc0020285.1_g000003 Rmu_sc0026896.1_g000002 Rmu_ssc0000019.1_g000029
rosa_roxburghii Rroxscaffold_3G00224890 Rroxscaffold_6G00400640 Rroxscaffold_7G00176590 Rroxscaffold_7G00189230
rosa_samantha Rh4BG046700
rosa_wichuraiana Rw1G012690 Rw1G031370 Rw2G042180 Rw2G043670 Rw2G046240 Rw2G049890 Rw2G050760 Rw2G051280 Rw2G053590 Rw3G007590 Rw3G026850 Rw4G001540 Rw4G009760 Rw4G019270 Rw5G000720 Rw5G005620 Rw5G041560 Rw6G007370 Rw6G009830 Rw6G015360 Rw6G031160 Rw7G004930 Rw7G011010 Rw7G024230 Rw7G028240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 366
AccII CGCG 1 cut(s) 264
AccIII TCCGGA 1 cut(s) 298
AciI CCGC 1 cut(s) 262
AclWI GGATC 2 cut(s) 309, 461
AcsI RAATTY 3 cut(s) 92, 1025, 1118
AcuI CTGAAG 2 cut(s) 861, 1010
AfaI GTAC 3 cut(s) 133, 353, 854
AfiI CCNNNNNNNGG 2 cut(s) 213, 609
AflII CTTAAG 1 cut(s) 664
AflIII ACRYGT 1 cut(s) 904
AjnI CCWGG 1 cut(s) 1084
Alw26I GTCTC 3 cut(s) 239, 779, 859
AlwI GGATC 2 cut(s) 309, 461
AlwNI CAGNNNCTG 1 cut(s) 888
Aor13HI TCCGGA 1 cut(s) 298
AoxI GGCC 1 cut(s) 1096
ApeKI GCWGC 3 cut(s) 64, 411, 882
ApoI RAATTY 3 cut(s) 92, 1025, 1118
ArsI GACNNNNNNTTYG 2 cut(s) 243, 275
Asp700I GAANNNNTTC 2 cut(s) 759, 970
AsuC2I CCSGG 1 cut(s) 416
AsuHPI GGTGA 3 cut(s) 784, 988, 1079
AsuII TTCGAA 1 cut(s) 763
BarI GAAGNNNNNNTAC 2 cut(s) 869, 901
BbsI GAAGAC 3 cut(s) 180, 447, 687
BbvCI CCTCAGC 1 cut(s) 81
BbvI GCAGC 3 cut(s) 51, 398, 894
BccI CCATC 3 cut(s) 122, 241, 727
BciT130I CCWGG 1 cut(s) 1086
BcnI CCSGG 1 cut(s) 416
BcoDI GTCTC 3 cut(s) 239, 779, 859
BfaI CTAG 3 cut(s) 194, 609, 810
BfrI CTTAAG 1 cut(s) 664
BfuAI ACCTGC 1 cut(s) 366
BisI GCNGC 3 cut(s) 65, 412, 883
BlpI GCTNAGC 1 cut(s) 711
BlsI GCNGC 3 cut(s) 66, 413, 884
BmcAI AGTACT 1 cut(s) 353
Bme1390I CCNGG 2 cut(s) 416, 1086
BmrFI CCNGG 2 cut(s) 416, 1086
BpiI GAAGAC 3 cut(s) 180, 447, 687
BplI GAGNNNNNCTC 2 cut(s) 276, 308
Bpu10I CCTNAGC 1 cut(s) 81
Bpu1102I GCTNAGC 1 cut(s) 711
Bpu14I TTCGAA 1 cut(s) 763
BpuEI CTTGAG 2 cut(s) 465, 706
BpuMI CCSGG 1 cut(s) 416
BsaBI GATNNNNATC 1 cut(s) 140
BsaI GGTCTC 3 cut(s) 239, 779, 859
BsaJI CCNNGG 2 cut(s) 547, 603
BsaWI WCCGGW 1 cut(s) 298
Bsc4I CCNNNNNNNGG 2 cut(s) 213, 609
Bse8I GATNNNNATC 1 cut(s) 140
BseAI TCCGGA 1 cut(s) 298
BseBI CCWGG 1 cut(s) 1086
BseDI CCNNGG 2 cut(s) 547, 603
BseGI GGATG 2 cut(s) 570, 586
BseJI GATNNNNATC 1 cut(s) 140
BseLI CCNNNNNNNGG 2 cut(s) 213, 609
BseMII CTCAG 4 cut(s) 26, 72, 212, 1054
BseRI GAGGAG 4 cut(s) 383, 644, 647, 703
BseXI GCAGC 3 cut(s) 51, 398, 894
BseYI CCCAGC 1 cut(s) 406
BsgI GTGCAG 2 cut(s) 132, 901
Bsh1236I CGCG 1 cut(s) 264
BshFI GGCC 1 cut(s) 1098
BsiSI CCGG 2 cut(s) 299, 416
BslFI GGGAC 2 cut(s) 42, 200
BslI CCNNNNNNNGG 2 cut(s) 213, 609
BsmAI GTCTC 3 cut(s) 239, 779, 859
BsmFI GGGAC 2 cut(s) 42, 200
BsmI GAATGC 1 cut(s) 712
BsnI GGCC 1 cut(s) 1098
Bso31I GGTCTC 3 cut(s) 239, 779, 859
Bsp119I TTCGAA 1 cut(s) 763
Bsp13I TCCGGA 1 cut(s) 298
Bsp1407I TGTACA 1 cut(s) 852
Bsp143I GATC 5 cut(s) 301, 315, 453, 511, 1105
Bsp1720I GCTNAGC 1 cut(s) 711
BspACI CCGC 1 cut(s) 262
BspANI GGCC 1 cut(s) 1098
BspCNI CTCAG 4 cut(s) 27, 73, 213, 1053
BspEI TCCGGA 1 cut(s) 298
BspFNI CGCG 1 cut(s) 264
BspHI TCATGA 1 cut(s) 333
BspMI ACCTGC 1 cut(s) 366
BspPI GGATC 2 cut(s) 309, 461
BspT104I TTCGAA 1 cut(s) 763
BspTI CTTAAG 1 cut(s) 664
BspTNI GGTCTC 3 cut(s) 239, 779, 859
BsrGI TGTACA 1 cut(s) 852
BssECI CCNNGG 2 cut(s) 547, 603
BssMI GATC 5 cut(s) 301, 315, 453, 511, 1105
Bst2UI CCWGG 1 cut(s) 1086
Bst4CI ACNGT 2 cut(s) 604, 890
Bst6I CTCTTC 1 cut(s) 750
BstAFI CTTAAG 1 cut(s) 664
BstAUI TGTACA 1 cut(s) 852
BstBI TTCGAA 1 cut(s) 763
BstC8I GCNNGC 2 cut(s) 661, 837
BstDEI CTNAG 6 cut(s) 35, 81, 169, 221, 711, 1040
BstDSI CCRYGG 1 cut(s) 603
BstENI CCTNNNNNAGG 1 cut(s) 211
BstF5I GGATG 2 cut(s) 570, 586
BstFNI CGCG 1 cut(s) 264
BstKTI GATC 5 cut(s) 304, 318, 456, 514, 1108
BstMAI GTCTC 3 cut(s) 239, 779, 859
BstMBI GATC 5 cut(s) 301, 315, 453, 511, 1105
BstNI CCWGG 1 cut(s) 1086
BstNSI RCATGY 1 cut(s) 908
BstSCI CCNGG 2 cut(s) 414, 1084
BstUI CGCG 1 cut(s) 264
BstV1I GCAGC 3 cut(s) 51, 398, 894
BstV2I GAAGAC 3 cut(s) 180, 447, 687
BsuRI GGCC 1 cut(s) 1098
BtgI CCRYGG 1 cut(s) 603
BtsCI GGATG 2 cut(s) 570, 586
BtsIMutI CAGTG 1 cut(s) 1101
BveI ACCTGC 1 cut(s) 366
Cac8I GCNNGC 2 cut(s) 661, 837
CaiI CAGNNNCTG 1 cut(s) 888
CciI TCATGA 1 cut(s) 333
Csp6I GTAC 3 cut(s) 132, 352, 853
CviAII CATG 4 cut(s) 334, 905, 1081, 1157
CviQI GTAC 3 cut(s) 132, 352, 853
DdeI CTNAG 6 cut(s) 35, 81, 169, 221, 711, 1040
DpnI GATC 5 cut(s) 303, 317, 455, 513, 1107
DpnII GATC 5 cut(s) 301, 315, 453, 511, 1105
Eam1104I CTCTTC 1 cut(s) 750
EarI CTCTTC 1 cut(s) 750
Eco31I GGTCTC 3 cut(s) 239, 779, 859
Eco57I CTGAAG 2 cut(s) 861, 1010
EcoNI CCTNNNNNAGG 1 cut(s) 211
EcoRII CCWGG 1 cut(s) 1084
FaeI CATG 4 cut(s) 337, 908, 1084, 1160
FaqI GGGAC 2 cut(s) 42, 200
FatI CATG 4 cut(s) 333, 904, 1080, 1156
FauNDI CATATG 1 cut(s) 917
Fnu4HI GCNGC 3 cut(s) 65, 412, 883
FokI GGATG 2 cut(s) 577, 593
Fsp4HI GCNGC 3 cut(s) 65, 412, 883
FspBI CTAG 3 cut(s) 194, 609, 810
GluI GCNGC 3 cut(s) 65, 412, 883
GsaI CCCAGC 1 cut(s) 410
HaeIII GGCC 1 cut(s) 1098
HapII CCGG 2 cut(s) 299, 416
Hin1II CATG 4 cut(s) 337, 908, 1084, 1160
HindIII AAGCTT 2 cut(s) 661, 1164
HinfI GANTC 4 cut(s) 152, 691, 760, 925
HpaII CCGG 2 cut(s) 299, 416
HphI GGTGA 3 cut(s) 784, 988, 1079
Hpy166II GTNNAC 2 cut(s) 853, 996
Hpy188I TCNGA 2 cut(s) 306, 673
Hpy188III TCNNGA 4 cut(s) 194, 299, 334, 935
Hpy8I GTNNAC 2 cut(s) 853, 996
HpyAV CCTTC 3 cut(s) 518, 956, 1088
HpyCH4III ACNGT 2 cut(s) 604, 890
HpyCH4V TGCA 4 cut(s) 113, 361, 882, 1136
HpyF3I CTNAG 6 cut(s) 35, 81, 169, 221, 711, 1040
Hsp92II CATG 4 cut(s) 337, 908, 1084, 1160
Kpn2I TCCGGA 1 cut(s) 298
Kzo9I GATC 5 cut(s) 301, 315, 453, 511, 1105
LmnI GCTCC 2 cut(s) 61, 378
Lsp1109I GCAGC 3 cut(s) 51, 398, 894
MaeI CTAG 3 cut(s) 194, 609, 810
MaeIII GTNAC 2 cut(s) 216, 692
MalI GATC 5 cut(s) 303, 317, 455, 513, 1107
MboI GATC 5 cut(s) 301, 315, 453, 511, 1105
MboII GAAGA 8 cut(s) 185, 351, 452, 506, 692, 767, 1082, 1100
MluCI AATT 5 cut(s) 92, 307, 1025, 1089, 1118
MlyI GAGTC 1 cut(s) 700
MmeI TCCRAC 2 cut(s) 880, 902
MroI TCCGGA 1 cut(s) 298
MroXI GAANNNNTTC 2 cut(s) 759, 970
MseI TTAA 4 cut(s) 620, 665, 825, 1168
MslI CAYNNNNRTG 1 cut(s) 701
MspCI CTTAAG 1 cut(s) 664
MspI CCGG 2 cut(s) 299, 416
MspR9I CCNGG 2 cut(s) 416, 1086
Mva1269I GAATGC 1 cut(s) 712
MvaI CCWGG 1 cut(s) 1086
MvnI CGCG 1 cut(s) 264
NciI CCSGG 1 cut(s) 416
NdeI CATATG 1 cut(s) 917
NdeII GATC 5 cut(s) 301, 315, 453, 511, 1105
NlaIII CATG 4 cut(s) 337, 908, 1084, 1160
NmuCI GTSAC 1 cut(s) 692
NspI RCATGY 1 cut(s) 908
NspV TTCGAA 1 cut(s) 763
PagI TCATGA 1 cut(s) 333
PciI ACATGT 1 cut(s) 904
PctI GAATGC 1 cut(s) 712
PdmI GAANNNNTTC 2 cut(s) 759, 970
PfeI GAWTC 3 cut(s) 152, 760, 925
PkrI GCNGC 3 cut(s) 66, 413, 884
PleI GAGTC 1 cut(s) 699
PpsI GAGTC 1 cut(s) 699
PscI ACATGT 1 cut(s) 904
Psp6I CCWGG 1 cut(s) 1084
PspFI CCCAGC 1 cut(s) 406
PspGI CCWGG 1 cut(s) 1084
PstNI CAGNNNCTG 1 cut(s) 888
RsaI GTAC 3 cut(s) 133, 353, 854
RsaNI GTAC 3 cut(s) 132, 352, 853
RseI CAYNNNNRTG 1 cut(s) 701
SaqAI TTAA 4 cut(s) 620, 665, 825, 1168
SatI GCNGC 3 cut(s) 65, 412, 883
Sau3AI GATC 5 cut(s) 301, 315, 453, 511, 1105
ScaI AGTACT 1 cut(s) 353
SchI GAGTC 1 cut(s) 700
ScrFI CCNGG 2 cut(s) 416, 1086
SfuI TTCGAA 1 cut(s) 763
SmiMI CAYNNNNRTG 1 cut(s) 701
SmlI CTYRAG 3 cut(s) 480, 664, 685
SmoI CTYRAG 3 cut(s) 480, 664, 685
Sse9I AATT 5 cut(s) 92, 307, 1025, 1089, 1118
SsiI CCGC 1 cut(s) 262
SspMI CTAG 3 cut(s) 194, 609, 810
StyD4I CCNGG 2 cut(s) 414, 1084
TaaI ACNGT 2 cut(s) 604, 890
TaqI TCGA 2 cut(s) 236, 763
TasI AATT 5 cut(s) 92, 307, 1025, 1089, 1118
TatI WGTACW 2 cut(s) 351, 852
TfiI GAWTC 3 cut(s) 152, 760, 925
Tru1I TTAA 4 cut(s) 620, 665, 825, 1168
Tru9I TTAA 4 cut(s) 620, 665, 825, 1168
TscAI CASTG 1 cut(s) 1108
TseFI GTSAC 1 cut(s) 692
TseI GCWGC 3 cut(s) 64, 411, 882
Tsp45I GTSAC 1 cut(s) 692
TspDTI ATGAA 9 cut(s) 144, 169, 322, 382, 482, 693, 719, 791, 1006
TspRI CASTG 1 cut(s) 1108
Vha464I CTTAAG 1 cut(s) 664
XagI CCTNNNNNAGG 1 cut(s) 211
XapI RAATTY 3 cut(s) 92, 1025, 1118
XbaI TCTAGA 1 cut(s) 193
XceI RCATGY 1 cut(s) 908
XmnI GAANNNNTTC 2 cut(s) 759, 970
XspI CTAG 3 cut(s) 194, 609, 810
ZrmI AGTACT 1 cut(s) 353
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.